Understanding airspace in leaves: 3D anatomy and directional tortuosity

This dataset is presented in the following publication. Please cite this publication if you use the dataset. The accepted version can be accessed here:(https://onlinelibrary.wiley.com/share/author/DPQAQKKG2MNRS5KQEUAP?target=10.1111/pce.14079).

Harwood, R., Théroux‐Rancourt, G. and Barbour, M.M. (2021), Understanding Airspace in Leaves: 3D Anatomy and Directional Tortuosity. Plant Cell Environ. Accepted Author Manuscript. [https://doi.org/10.1111/pce.14079]()

Description of the dataset

This dataset consists of scanning block face scanning electron microscopy (SBF-SEM) images of four anatomically contrasting Eucalyptus species, E. grandis, E. camaldulensis, E. occidentalis, and E. parramattensis. A single leaf was imaged for each species. More details on the imaging method can be found in Harwood et al. (2020).

The following images are present for each species:

SBFSEM: Raw micrograph. 8-bit grayscale image.

Labels: Individual cells have been labelled, i.e. each have a single value, as well as other leaf tissues (e.g. epidermis, veins). The intercellular airspace has a single value.

Cropped: The 'Labels' stack that was cropped to run a random walk analysis within the intercellular airspace. The the paper for further details on this method.

Palisade, Adaxial/abaxial Palisade: An image stack cropped within the palisade mesophyll tissue. Some species had palisade tissue facing each epidermis and a substack was created for each.

Spongy: An image stack cropped within the spongy mesophyll tissue.

In all stacks, the leaves are oriented so that the adaxial epidermis (top of the leaf) is towards the top of the canvas, and the abaxial epidermis is towards the bottom of the canvas. The lateral orientation of the image in regards to the leaf lamina is unknown.

For all species, the voxel depth is 50 nm. Voxel height and width is:

E. occidentalis, E. grandis and E. camaldulensis: 90nm × 90nm

E. parramattensis: 150nm × 150nm

References

Harwood, R., Goodman, E., Gudmundsdottir, M., Huynh, M., Musulin, Q., Song, M., & Barbour, M. M. (2020). Cell and chloroplast anatomical features are poorly estimated from 2D cross‐sections. New Phytologist, 225, 2567-2578. [https://doi.org/10.1111/nph.16219](https://doi.org/10.1111/nph.16219)